Mercurial > repos > ieguinoa > data_manager_fetch_gff
comparison data_manager/data_manager_fetch_gff.xml @ 3:cb0fa3584aeb draft
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| author | ieguinoa |
|---|---|
| date | Tue, 09 Oct 2018 14:32:48 -0400 |
| parents | c57bd7f3fb46 |
| children |
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| 2:c57bd7f3fb46 | 3:cb0fa3584aeb |
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| 1 <tool id="data_manager_fetch_gff" name="Create entries in gff data table" version="0.0.1" tool_type="manage_data"> | 1 <tool id="data_manager_fetch_gff" name="Create entries in gff data table" version="0.0.1" tool_type="manage_data"> |
| 2 <description>fetching</description> | 2 <description>fetching</description> |
| 3 <command><![CDATA[ | 3 <command><![CDATA[ |
| 4 python "$__tool_directory__"/data_manager_fetch_gff.py "${out_file}" | 4 python "$__tool_directory__"/data_manager_fetch_gff.py "${out_file}" |
| 5 --type $file_type | |
| 6 --dbkey_description ${ dbkey.get_display_text() } | 5 --dbkey_description ${ dbkey.get_display_text() } |
| 7 | 6 |
| 8 ]]></command> | 7 ]]></command> |
| 9 <inputs> | 8 <inputs> |
| 10 <param name="file_type" type="select" label="GFF file with only one representative transcript per gene (for htseq-count use) or full features file"> | |
| 11 <option value="representative">Representative GFF</option> | |
| 12 <option value="full">GFF with complete features</option> | |
| 13 </param> | |
| 14 | |
| 15 <param name="dbkey" type="genomebuild" label="DBKEY to assign to data" /> | 9 <param name="dbkey" type="genomebuild" label="DBKEY to assign to data" /> |
| 16 <param type="text" name="sequence_name" value="" label="Name of sequence" /> | 10 <param type="text" name="sequence_name" value="" label="Name of sequence" /> |
| 17 <param type="text" name="sequence_id" value="" label="ID for sequence" /> | 11 <param type="text" name="sequence_id" value="" label="ID for sequence" /> |
| 18 <conditional name="reference_source"> | 12 <conditional name="reference_source"> |
| 19 <param name="reference_source_selector" type="select" label="Choose the source for the reference genome"> | 13 <param name="reference_source_selector" type="select" label="Choose the source for the reference genome"> |